{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,23]],"date-time":"2026-10-23T02:16:09Z","timestamp":1792721769090,"version":"4.5.0"},"reference-count":154,"publisher":"Elsevier BV","issue":"20","license":[{"start":{"date-parts":[[2024,10,1]],"date-time":"2024-10-01T00:00:00Z","timestamp":1727740800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2024,10,1]],"date-time":"2024-10-01T00:00:00Z","timestamp":1727740800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2024,8,11]],"date-time":"2024-08-11T00:00:00Z","timestamp":1723334400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000289","name":"Cancer Research UK","doi-asserted-by":"publisher","award":["MR\/M016587\/1"],"award-info":[{"award-number":["MR\/M016587\/1"]}],"id":[{"id":"10.13039\/501100000289","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100010269","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["224361\/Z\/21\/Z"],"award-info":[{"award-number":["224361\/Z\/21\/Z"]}],"id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100005370","name":"Gates Cambridge Trust","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100005370","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000735","name":"University of Cambridge","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000735","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004488","name":"Hrvatska Zaklada za Znanost","doi-asserted-by":"publisher","award":["KK.01.1.1.01.0003"],"award-info":[{"award-number":["KK.01.1.1.01.0003"]}],"id":[{"id":"10.13039\/501100004488","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004488","name":"Hrvatska Zaklada za Znanost","doi-asserted-by":"publisher","award":["UIP-2017-05-5258"],"award-info":[{"award-number":["UIP-2017-05-5258"]}],"id":[{"id":"10.13039\/501100004488","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004488","name":"Hrvatska Zaklada za Znanost","doi-asserted-by":"publisher","award":["IPS-2020-01-4225"],"award-info":[{"award-number":["IPS-2020-01-4225"]}],"id":[{"id":"10.13039\/501100004488","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000265","name":"Medical Research Council","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000265","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000769","name":"UNIVERSITY OF OXFORD","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000769","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000272","name":"National Institute for Health and Care Research","doi-asserted-by":"publisher","award":["MR\/X006409\/1"],"award-info":[{"award-number":["MR\/X006409\/1"]}],"id":[{"id":"10.13039\/501100000272","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100018948","name":"Saudi Arabian Cultural Bureau","doi-asserted-by":"publisher","award":["022543-00001"],"award-info":[{"award-number":["022543-00001"]}],"id":[{"id":"10.13039\/100018948","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100018948","name":"Saudi Arabian Cultural Bureau","doi-asserted-by":"publisher","award":["1067945301"],"award-info":[{"award-number":["1067945301"]}],"id":[{"id":"10.13039\/100018948","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001475","name":"Nanyang Technological University","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001475","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["cell.com","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Cell"],"published-print":{"date-parts":[[2024,10]]},"DOI":"10.1016\/j.cell.2024.08.020","type":"journal-article","created":{"date-parts":[[2024,9,11]],"date-time":"2024-09-11T10:36:22Z","timestamp":1726050982000},"page":"5698-5718.e26","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":59,"title":["TEX264 drives selective autophagy of DNA lesions to promote DNA repair and cell survival"],"prefix":"10.1016","volume":"187","author":[{"given":"Pauline","family":"Lascaux","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gwendoline","family":"Hoslett","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sara","family":"Tribble","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Camilla","family":"Trugenberger","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ivan","family":"Anti\u010devi\u0107","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cecile","family":"Otten","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ignacio","family":"Torrecilla","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stelios","family":"Koukouravas","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yichen","family":"Zhao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hongbin","family":"Yang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ftoon","family":"Aljarbou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Annamaria","family":"Ruggiano","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wei","family":"Song","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cristiano","family":"Peron","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Giulio","family":"Deangeli","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Enric","family":"Domingo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"James","family":"Bancroft","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lo\u00efc","family":"Carrique","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Errin","family":"Johnson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Iolanda","family":"Vendrell","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Roman","family":"Fischer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alvin Wei Tian","family":"Ng","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joanne","family":"Ngeow","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vincenzo","family":"D\u2019Angiolella","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nuno","family":"Raimundo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tim","family":"Maughan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marta","family":"Popovi\u0107","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ira","family":"Milo\u0161evi\u0107","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5522-021X","authenticated-orcid":false,"given":"Kristijan","family":"Ramadan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.cell.2024.08.020_bib1","doi-asserted-by":"crossref","first-page":"703","DOI":"10.1038\/nrm.2016.111","article-title":"Roles of eukaryotic topoisomerases in transcription, replication and genomic stability","volume":"17","author":"Pommier","year":"2016","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib2","doi-asserted-by":"crossref","first-page":"964","DOI":"10.1038\/171964b0","article-title":"Genetical Implications of the Structure of Deoxyribonucleic Acid","volume":"171","author":"Watson","year":"1953","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib3","doi-asserted-by":"crossref","first-page":"51","DOI":"10.1007\/s12551-016-0242-6","article-title":"Effects of DNA supercoiling on chromatin architecture","volume":"8","author":"Corless","year":"2016","journal-title":"Biophys. Rev."},{"key":"10.1016\/j.cell.2024.08.020_bib4","doi-asserted-by":"crossref","first-page":"137","DOI":"10.1038\/nrc3892","article-title":"Topoisomerase-mediated chromosomal break repair: an emerging player in many games","volume":"15","author":"Ashour","year":"2015","journal-title":"Nat. Rev. Cancer"},{"key":"10.1016\/j.cell.2024.08.020_bib5","doi-asserted-by":"crossref","first-page":"414","DOI":"10.1038\/326414a0","article-title":"Need for DNA topoisomerase activity as a swivel for DNA replication for transcription of ribosomal RNA","volume":"326","author":"Brill","year":"1987","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib6","doi-asserted-by":"crossref","first-page":"789","DOI":"10.1038\/nrc1977","article-title":"Topoisomerase I inhibitors: camptothecins and beyond","volume":"6","author":"Pommier","year":"2006","journal-title":"Nat. Rev. Cancer"},{"key":"10.1016\/j.cell.2024.08.020_bib7","doi-asserted-by":"crossref","first-page":"563","DOI":"10.1038\/nrm.2017.56","article-title":"Mechanisms of DNA\u2013protein crosslink repair","volume":"18","author":"Stingele","year":"2017","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib8","doi-asserted-by":"crossref","first-page":"285","DOI":"10.1038\/s41586-018-0291-z","article-title":"CRISPR screens identify genomic ribonucleotides as a source of PARP-trapping lesions","volume":"559","author":"Zimmermann","year":"2018","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib9","doi-asserted-by":"crossref","first-page":"407","DOI":"10.1038\/s41580-022-00452-3","article-title":"Human topoisomerases and their roles in genome stability and organization","volume":"23","author":"Pommier","year":"2022","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib10","doi-asserted-by":"crossref","first-page":"837","DOI":"10.1023\/A:1008270717294","article-title":"Topoisomerase I inhibitors: Review and update","volume":"8","author":"Rothenberg","year":"1997","journal-title":"Ann. Oncol."},{"key":"10.1016\/j.cell.2024.08.020_bib11","doi-asserted-by":"crossref","DOI":"10.1016\/j.phrs.2019.104398","article-title":"Irinotecan: 25 years of cancer treatment","volume":"148","author":"Bailly","year":"2019","journal-title":"Pharmacol. Res."},{"key":"10.1016\/j.cell.2024.08.020_bib12","doi-asserted-by":"crossref","first-page":"6581","DOI":"10.1158\/1078-0432.CCR-19-1089","article-title":"Targeting Topoisomerase I in the Era of Precision Medicine","volume":"25","author":"Thomas","year":"2019","journal-title":"Clin. Cancer Res."},{"key":"10.1016\/j.cell.2024.08.020_bib13","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1177\/1758834015614530","article-title":"Pharmacologic resistance in colorectal cancer: a review","volume":"8","author":"Hammond","year":"2016","journal-title":"Ther. Adv. Med. Oncol."},{"key":"10.1016\/j.cell.2024.08.020_bib14","first-page":"946","article-title":"Cellular irinotecan resistance in colorectal cancer and overcoming irinotecan refractoriness through various combination trials including DNA methyltransferase inhibitors: a review","volume":"4","author":"Ozawa","year":"2021","journal-title":"Cancer Drug Resist."},{"key":"10.1016\/j.cell.2024.08.020_bib15","doi-asserted-by":"crossref","first-page":"674","DOI":"10.1038\/nature08444","article-title":"A human 5\u2032-tyrosyl DNA phosphodiesterase that repairs topoisomerase-mediated DNA damage","volume":"461","author":"Cortes Ledesma","year":"2009","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib16","doi-asserted-by":"crossref","first-page":"102900","DOI":"10.1016\/j.dnarep.2020.102900","article-title":"Untangling trapped topoisomerases with tyrosyl-DNA phosphodiesterases","volume":"94","author":"Zagnoli-Vieira","year":"2020","journal-title":"DNA Repair"},{"key":"10.1016\/j.cell.2024.08.020_bib17","doi-asserted-by":"crossref","first-page":"114","DOI":"10.1016\/j.dnarep.2014.03.020","article-title":"Tyrosyl-DNA-phosphodiesterases (TDP1 and TDP2)","volume":"19","author":"Pommier","year":"2014","journal-title":"DNA Repair"},{"key":"10.1016\/j.cell.2024.08.020_bib18","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-023-42622-7","article-title":"TDP1 suppresses chromosomal translocations and cell death induced by abortive TOP1 activity during gene transcription","volume":"14","author":"Rubio-Contreras","year":"2023","journal-title":"Nat. Commun."},{"key":"10.1016\/j.cell.2024.08.020_bib19","doi-asserted-by":"crossref","DOI":"10.1016\/j.dnarep.2020.102837","article-title":"Excision repair of topoisomerase DNA-protein crosslinks (TOP-DPC)","volume":"89","author":"Sun","year":"2020","journal-title":"DNA Repair"},{"key":"10.1016\/j.cell.2024.08.020_bib20","doi-asserted-by":"crossref","first-page":"44945","DOI":"10.1074\/jbc.M111.299347","article-title":"DNA Repair Factor MRE11\/RAD50 Cleaves 3\u2032-Phosphotyrosyl Bonds and Resects DNA to Repair Damage Caused by Topoisomerase 1 Poisons","volume":"286","author":"Sacho","year":"2011","journal-title":"J.\u00a0Biol. Chem."},{"key":"10.1016\/j.cell.2024.08.020_bib21","doi-asserted-by":"crossref","first-page":"24159","DOI":"10.1074\/jbc.272.39.24159","article-title":"Ubiquitin-dependent Destruction of Topoisomerase I Is Stimulated by the Antitumor Drug Camptothecin","volume":"272","author":"Desai","year":"1997","journal-title":"J.\u00a0Biol. Chem."},{"key":"10.1016\/j.cell.2024.08.020_bib22","doi-asserted-by":"crossref","first-page":"1114","DOI":"10.1158\/0008-5472.CAN-03-2858","article-title":"Cullin 3 Promotes Proteasomal Degradation of the Topoisomerase I-DNA Covalent Complex","volume":"64","author":"Zhang","year":"2004","journal-title":"Cancer Res."},{"key":"10.1016\/j.cell.2024.08.020_bib23","doi-asserted-by":"crossref","first-page":"21074","DOI":"10.1074\/jbc.M803493200","article-title":"A Ubiquitin-Proteasome Pathway for the Repair of Topoisomerase I-DNA Covalent Complexes","volume":"283","author":"Lin","year":"2008","journal-title":"J.\u00a0Biol. Chem."},{"key":"10.1016\/j.cell.2024.08.020_bib24","doi-asserted-by":"crossref","first-page":"28084","DOI":"10.1074\/jbc.M109.030601","article-title":"Proteasome-dependent Processing of Topoisomerase I-DNA Adducts into DNA Double Strand Breaks at Arrested Replication Forks","volume":"284","author":"Lin","year":"2009","journal-title":"J.\u00a0Biol. Chem."},{"key":"10.1016\/j.cell.2024.08.020_bib25","article-title":"PARylation prevents the proteasomal degradation of topoisomerase I DNA-protein crosslinks and induces their deubiquitylation","volume":"12","author":"Sun","year":"2021","journal-title":"Nat. Commun."},{"key":"10.1016\/j.cell.2024.08.020_bib26","doi-asserted-by":"crossref","first-page":"271","DOI":"10.1093\/jnci\/85.4.271","article-title":"The Current Status of Camptothecin Analogues as Antitumor Agents","volume":"85","author":"Slichenmyer","year":"1993","journal-title":"J.\u00a0Natl. Cancer Inst."},{"key":"10.1016\/j.cell.2024.08.020_bib27","first-page":"1635","article-title":"Clinical status and optimal use of topotecan","volume":"11","author":"Takimoto","year":"1997","journal-title":"Oncology (Williston Park)"},{"key":"10.1016\/j.cell.2024.08.020_bib28","doi-asserted-by":"crossref","first-page":"417","DOI":"10.1038\/nsmb.2258","article-title":"Topoisomerase I poisoning results in PARP-mediated replication fork reversal","volume":"19","author":"Ray Chaudhuri","year":"2012","journal-title":"Nat. Struct. Mol. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib29","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-020-15000-w","article-title":"TEX264 coordinates p97- and SPRTN-mediated resolution of topoisomerase 1-DNA adducts","volume":"11","author":"Fielden","year":"2020","journal-title":"Nat. Commun."},{"key":"10.1016\/j.cell.2024.08.020_bib30","doi-asserted-by":"crossref","first-page":"704","DOI":"10.1016\/j.molcel.2016.09.032","article-title":"Metalloprotease SPRTN\/DVC1 Orchestrates Replication-Coupled DNA-Protein Crosslink Repair","volume":"64","author":"Vaz","year":"2016","journal-title":"Mol. Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib31","doi-asserted-by":"crossref","first-page":"688","DOI":"10.1016\/j.molcel.2016.09.031","article-title":"Mechanism and Regulation of DNA-Protein Crosslink Repair by the DNA-Dependent Metalloprotease SPRTN","volume":"64","author":"Stingele","year":"2016","journal-title":"Mol. Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib32","doi-asserted-by":"crossref","first-page":"327","DOI":"10.1016\/j.cell.2014.04.053","article-title":"A DNA-Dependent Protease Involved in DNA-Protein Crosslink Repair","volume":"158","author":"Stingele","year":"2014","journal-title":"Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib33","doi-asserted-by":"crossref","first-page":"891","DOI":"10.1016\/j.molcel.2019.03.034","article-title":"TEX264 Is an Endoplasmic Reticulum-Resident ATG8-Interacting Protein Critical for ER Remodeling during Nutrient Stress","volume":"74","author":"An","year":"2019","journal-title":"Mol. Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib34","doi-asserted-by":"crossref","first-page":"909","DOI":"10.1016\/j.molcel.2019.03.033","article-title":"Intrinsically Disordered Protein TEX264 Mediates ER-phagy","volume":"74","author":"Chino","year":"2019","journal-title":"Mol. Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib35","doi-asserted-by":"crossref","first-page":"349","DOI":"10.1038\/s41580-018-0003-4","article-title":"Mechanism and medical implications of mammalian autophagy","volume":"19","author":"Dikic","year":"2018","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib36","doi-asserted-by":"crossref","first-page":"453","DOI":"10.1146\/annurev-cellbio-100818-125300","article-title":"Diverse Cellular Roles of Autophagy","volume":"35","author":"Morishita","year":"2019","journal-title":"Annu. Rev. Cell Dev. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib37","doi-asserted-by":"crossref","first-page":"931","DOI":"10.1038\/nrm2245","article-title":"Autophagy: from phenomenology to molecular understanding in less than a decade","volume":"8","author":"Klionsky","year":"2007","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib38","doi-asserted-by":"crossref","first-page":"170","DOI":"10.1038\/s41577-018-0095-2","article-title":"Autophagy in the renewal, differentiation and homeostasis of immune cells","volume":"19","author":"Clarke","year":"2019","journal-title":"Nat. Rev. Immunol."},{"key":"10.1016\/j.cell.2024.08.020_bib39","doi-asserted-by":"crossref","first-page":"435","DOI":"10.1146\/annurev.ph.28.030166.002251","article-title":"Functions of Lysosomes","volume":"28","author":"de Duve","year":"1966","journal-title":"Annu.\u00a0Rev. Physiol."},{"key":"10.1016\/j.cell.2024.08.020_bib40","doi-asserted-by":"crossref","first-page":"740","DOI":"10.4161\/auto.6398","article-title":"Autophagy revisited: A conversation with Christian de Duve","volume":"4","author":"Klionsky","year":"2008","journal-title":"Autophagy"},{"key":"10.1016\/j.cell.2024.08.020_bib41","doi-asserted-by":"crossref","first-page":"75","DOI":"10.1111\/febs.15824","article-title":"A guide to the regulation of selective autophagy receptors","volume":"289","author":"Gubas","year":"2022","journal-title":"FEBS J."},{"key":"10.1016\/j.cell.2024.08.020_bib42","doi-asserted-by":"crossref","first-page":"495","DOI":"10.1038\/ncb2979","article-title":"Cargo recognition and trafficking in selective autophagy","volume":"16","author":"Stolz","year":"2014","journal-title":"Nat. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib43","doi-asserted-by":"crossref","first-page":"425","DOI":"10.1083\/jcb.200412022","article-title":"Impairment of starvation-induced and constitutive autophagy in Atg7-deficient mice","volume":"169","author":"Komatsu","year":"2005","journal-title":"J.\u00a0Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib44","doi-asserted-by":"crossref","first-page":"131","DOI":"10.1186\/s12915-018-0603-7","article-title":"Open questions: why should we care about ER-phagy and ER remodelling?","volume":"16","author":"Dikic","year":"2018","journal-title":"BMC Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib45","doi-asserted-by":"crossref","first-page":"354","DOI":"10.1038\/nature14498","article-title":"Regulation of endoplasmic reticulum turnover by selective autophagy","volume":"522","author":"Khaminets","year":"2015","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib46","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1016\/j.cell.2007.12.018","article-title":"Autophagy in the Pathogenesis of Disease","volume":"132","author":"Levine","year":"2008","journal-title":"Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib47","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-019-12094-9","article-title":"Selective autophagy maintains centrosome integrity and accurate mitosis by turnover of centriolar satellites","volume":"10","author":"Holdgaard","year":"2019","journal-title":"Nat. Commun."},{"key":"10.1016\/j.cell.2024.08.020_bib48","doi-asserted-by":"crossref","first-page":"74","DOI":"10.1038\/nature09803","article-title":"HDACs link the DNA damage response, processing of double-strand breaks and autophagy","volume":"471","author":"Robert","year":"2011","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib49","doi-asserted-by":"crossref","first-page":"158","DOI":"10.1016\/j.mrfmmm.2011.03.007","article-title":"DNA damage and autophagy","volume":"711","author":"Rodriguez-Rocha","year":"2011","journal-title":"Mutat. Res."},{"key":"10.1016\/j.cell.2024.08.020_bib50","doi-asserted-by":"crossref","DOI":"10.1242\/jcs.260563","article-title":"Nucleophagy contributes to genome stability through degradation of type II topoisomerases A and B and nucleolar components","volume":"136","author":"Muci\u00f1o-Hern\u00e1ndez","year":"2023","journal-title":"J.\u00a0Cell Sci."},{"key":"10.1016\/j.cell.2024.08.020_bib51","doi-asserted-by":"crossref","first-page":"1621","DOI":"10.1101\/gad.1565707","article-title":"Autophagy mitigates metabolic stress and genome damage in mammary tumorigenesis","volume":"21","author":"Karantza-Wadsworth","year":"2007","journal-title":"Genes Dev."},{"key":"10.1016\/j.cell.2024.08.020_bib52","doi-asserted-by":"crossref","first-page":"2607","DOI":"10.1016\/j.devcel.2021.08.019","article-title":"Endosomal trafficking and DNA damage checkpoint kinases dictate survival to replication stress by regulating amino acid uptake and protein synthesis","volume":"56","author":"Ajazi","year":"2021","journal-title":"Dev. Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib53","doi-asserted-by":"crossref","first-page":"2445","DOI":"10.1091\/mbc.11.7.2445","article-title":"Nucleus\u2013Vacuole Junctions in Saccharomyces cerevisiae Are Formed Through the Direct Interaction of Vac8p with Nvj1p","volume":"11","author":"Pan","year":"2000","journal-title":"Mol. Biol. Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib54","doi-asserted-by":"crossref","first-page":"359","DOI":"10.1038\/nature14506","article-title":"Receptor-mediated selective autophagy degrades the endoplasmic reticulum and the nucleus","volume":"522","author":"Mochida","year":"2015","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib55","doi-asserted-by":"crossref","first-page":"384","DOI":"10.1016\/j.tcb.2020.02.001","article-title":"ER-Phagy: Quality Control and Turnover of Endoplasmic Reticulum","volume":"30","author":"Chino","year":"2020","journal-title":"Trends Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib56","doi-asserted-by":"crossref","first-page":"129","DOI":"10.1083\/jcb.201212110","article-title":"Lysosome-mediated processing of chromatin in senescence","volume":"202","author":"Ivanov","year":"2013","journal-title":"J.\u00a0Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib57","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1038\/nature15548","article-title":"Autophagy mediates degradation of nuclear lamina","volume":"527","author":"Dou","year":"2015","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib58","doi-asserted-by":"crossref","first-page":"187","DOI":"10.1038\/s41586-022-05545-9","article-title":"R-loop-derived cytoplasmic RNA\u2013DNA hybrids activate an immune response","volume":"613","author":"Crossley","year":"2023","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib59","doi-asserted-by":"crossref","first-page":"3976","DOI":"10.1080\/15548627.2021.1899440","article-title":"CGAS is a micronucleophagy receptor for the clearance of micronuclei","volume":"17","author":"Zhao","year":"2021","journal-title":"Autophagy"},{"key":"10.1016\/j.cell.2024.08.020_bib60","doi-asserted-by":"crossref","first-page":"795","DOI":"10.4161\/auto.8901","article-title":"Autophagic degradation of nuclear components in mammalian cells","volume":"5","author":"Park","year":"2009","journal-title":"Autophagy"},{"key":"10.1016\/j.cell.2024.08.020_bib61","doi-asserted-by":"crossref","first-page":"180","DOI":"10.1016\/j.celrep.2014.08.074","article-title":"Dnase2a Deficiency Uncovers Lysosomal Clearance of Damaged Nuclear DNA via Autophagy","volume":"9","author":"Lan","year":"2014","journal-title":"Cell Rep."},{"key":"10.1016\/j.cell.2024.08.020_bib62","doi-asserted-by":"crossref","first-page":"40","DOI":"10.1080\/15548627.2021.1894059","article-title":"TEX264 at the intersection of autophagy and DNA repair","volume":"18","author":"Fielden","year":"2022","journal-title":"Autophagy"},{"key":"10.1016\/j.cell.2024.08.020_bib63","doi-asserted-by":"crossref","first-page":"1084","DOI":"10.1016\/j.molcel.2020.12.025","article-title":"Proteome dynamics at broken replication forks reveal a distinct ATM-directed repair response suppressing DNA double-strand break ubiquitination","volume":"81","author":"Nakamura","year":"2021","journal-title":"Mol. Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib64","doi-asserted-by":"crossref","first-page":"998","DOI":"10.1016\/j.molcel.2015.07.030","article-title":"The Replication Checkpoint Prevents Two Types of Fork Collapse without Regulating Replisome Stability","volume":"59","author":"Dungrawala","year":"2015","journal-title":"Mol. Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib65","doi-asserted-by":"crossref","first-page":"300","DOI":"10.1016\/j.celrep.2016.03.027","article-title":"Nascent DNA Proteomics Reveals a Chromatin Remodeler Required for Topoisomerase I Loading at Replication Forks","volume":"15","author":"Ribeyre","year":"2016","journal-title":"Cell Rep."},{"key":"10.1016\/j.cell.2024.08.020_bib66","doi-asserted-by":"crossref","first-page":"3869","DOI":"10.1016\/j.celrep.2018.11.099","article-title":"Replisome Dynamics and Their Functional Relevance upon DNA Damage through the PCNA Interactome","volume":"25","author":"Srivastava","year":"2018","journal-title":"Cell Rep."},{"key":"10.1016\/j.cell.2024.08.020_bib67","doi-asserted-by":"crossref","first-page":"807","DOI":"10.1126\/science.aan6298","article-title":"Lysosomal metabolomics reveals V-ATPase- and mTOR-dependent regulation of amino acid efflux from lysosomes","volume":"358","author":"Abu-Remaileh","year":"2017","journal-title":"Science"},{"key":"10.1016\/j.cell.2024.08.020_bib68","doi-asserted-by":"crossref","first-page":"464","DOI":"10.1006\/excr.1995.1338","article-title":"Biosynthetic Transport of a Major Lysosomal Membrane Glycoprotein, Lamp-1: Convergence of Biosynthetic and Endocytic Pathways Occurs at Three Distinctive Points","volume":"220","author":"Akasaki","year":"1995","journal-title":"Exp. Cell Res."},{"key":"10.1016\/j.cell.2024.08.020_bib69","doi-asserted-by":"crossref","first-page":"2816","DOI":"10.1093\/nar\/gkw109","article-title":"Immunodetection of human topoisomerase I-DNA covalent complexes","volume":"44","author":"Patel","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.cell.2024.08.020_bib70","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1093\/nar\/gkad1178","article-title":"Isolation and detection of DNA\u2013protein crosslinks in mammalian cells","volume":"52","author":"Torrecilla","year":"2024","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.cell.2024.08.020_bib71","doi-asserted-by":"crossref","first-page":"956","DOI":"10.1126\/science.1225967","article-title":"Akt-Mediated Regulation of Autophagy and Tumorigenesis Through Beclin 1 Phosphorylation","volume":"338","author":"Wang","year":"2012","journal-title":"Science"},{"key":"10.1016\/j.cell.2024.08.020_bib72","doi-asserted-by":"crossref","first-page":"e104","DOI":"10.1093\/nar\/gkt171","article-title":"A rapid and sensitive assay for DNA-protein covalent complexes in living cells","volume":"41","author":"Kiianitsa","year":"2013","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.cell.2024.08.020_bib73","doi-asserted-by":"crossref","first-page":"1256","DOI":"10.1016\/j.cell.2012.11.001","article-title":"The Hairpin-type Tail-Anchored SNARE Syntaxin 17 Targets to Autophagosomes for Fusion with Endosomes\/Lysosomes","volume":"151","author":"Itakura","year":"2012","journal-title":"Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib74","doi-asserted-by":"crossref","first-page":"497","DOI":"10.1083\/jcb.200712064","article-title":"FIP200, a ULK-interacting protein, is required for autophagosome formation in mammalian cells","volume":"181","author":"Hara","year":"2008","journal-title":"J.\u00a0Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib75","doi-asserted-by":"crossref","first-page":"452","DOI":"10.4161\/auto.4451","article-title":"Dissection of the Autophagosome Maturation Process by a Novel Reporter Protein, Tandem Fluorescent-Tagged LC3","volume":"3","author":"Kimura","year":"2007","journal-title":"Autophagy"},{"key":"10.1016\/j.cell.2024.08.020_bib76","doi-asserted-by":"crossref","first-page":"1196","DOI":"10.1101\/gad.189274.112","article-title":"SUMO-targeted ubiquitin E3 ligase RNF4 is required for the response of human cells to DNA damage","volume":"26","author":"Yin","year":"2012","journal-title":"Genes Dev."},{"key":"10.1016\/j.cell.2024.08.020_bib77","first-page":"1","article-title":"Concerted SUMO-targeted ubiquitin ligase activities of TOPORS and RNF4 are essential for stress management and cell proliferation","volume":"1","author":"Liu","year":"2024","journal-title":"Nat. Struct. Mol. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib78","doi-asserted-by":"crossref","first-page":"6870","DOI":"10.1073\/pnas.1002175107","article-title":"A minority of foci or pan-nuclear apoptotic staining of \u03b3H2AX in the S phase after UV damage contain DNA double-strand breaks","volume":"107","author":"de Feraudy","year":"2010","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"10.1016\/j.cell.2024.08.020_bib79","doi-asserted-by":"crossref","first-page":"10780","DOI":"10.1093\/nar\/gks849","article-title":"Distinct roles for DNA-PK, ATM and ATR in RPA phosphorylation and checkpoint activation in response to replication stress","volume":"40","author":"Liu","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.cell.2024.08.020_bib80","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1016\/j.pbiomolbio.2020.11.005","article-title":"Roles of ATM and ATR in DNA double strand breaks and replication stress","volume":"161","author":"Williams","year":"2021","journal-title":"Prog. Biophys. Mol. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib81","doi-asserted-by":"crossref","first-page":"1107","DOI":"10.1093\/hmg\/11.9.1107","article-title":"Aggregate-prone proteins with polyglutamine and polyalanine expansions are degraded by autophagy","volume":"11","author":"Ravikumar","year":"2002","journal-title":"Hum. Mol. Genet."},{"key":"10.1016\/j.cell.2024.08.020_bib82","doi-asserted-by":"crossref","first-page":"173","DOI":"10.1007\/s12013-010-9138-4","article-title":"Novel Cell- and Tissue-Based Assays for Detecting Misfolded and Aggregated Protein Accumulation Within Aggresomes and Inclusion Bodies","volume":"60","author":"Shen","year":"2011","journal-title":"Cell Biochem. Biophys."},{"key":"10.1016\/j.cell.2024.08.020_bib83","article-title":"TDP1-independent pathways in the process and repair of TOP1-induced DNA damage","volume":"13","author":"Zhang","year":"2022","journal-title":"Nat. Commun."},{"key":"10.1016\/j.cell.2024.08.020_bib84","doi-asserted-by":"crossref","first-page":"110","DOI":"10.1186\/s12915-023-01614-1","article-title":"MUS81 cleaves TOP1-derived lesions and other DNA\u2013protein cross-links","volume":"21","author":"Marini","year":"2023","journal-title":"BMC Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib85","doi-asserted-by":"crossref","first-page":"739","DOI":"10.1083\/jcb.201104003","article-title":"Mus81-mediated DNA cleavage resolves replication forks stalled by topoisomerase I\u2013DNA complexes","volume":"195","author":"Regairaz","year":"2011","journal-title":"J.\u00a0Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib86","doi-asserted-by":"crossref","first-page":"1096","DOI":"10.1038\/nsmb1313","article-title":"The structure-specific endonuclease Mus81 contributes to replication restart by generating double-strand DNA breaks","volume":"14","author":"Hanada","year":"2007","journal-title":"Nat. Struct. Mol. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib87","doi-asserted-by":"crossref","first-page":"148","DOI":"10.1038\/s41594-022-00883-8","article-title":"Signal-induced enhancer activation requires Ku70 to read topoisomerase1\u2013DNA covalent complexes","volume":"30","author":"Tan","year":"2023","journal-title":"Nat. Struct. Mol. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib88","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1016\/j.cell.2016.02.036","article-title":"RNA Polymerase II Regulates Topoisomerase 1 Activity to Favor Efficient Transcription","volume":"165","author":"Baranello","year":"2016","journal-title":"Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib89","doi-asserted-by":"crossref","first-page":"684","DOI":"10.1038\/ncb3344","article-title":"Centromeric DNA replication reconstitution reveals DNA loops and ATR checkpoint suppression","volume":"18","author":"Aze","year":"2016","journal-title":"Nat. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib90","doi-asserted-by":"crossref","first-page":"88","DOI":"10.4161\/nucl.18954","article-title":"Transient nuclear envelope rupturing during interphase in human cancer cells","volume":"3","author":"Vargas","year":"2012","journal-title":"Nucleus"},{"key":"10.1016\/j.cell.2024.08.020_bib91","doi-asserted-by":"crossref","first-page":"116","DOI":"10.1038\/s41556-020-00630-5","article-title":"Functional mechanisms and abnormalities of the nuclear lamina","volume":"23","author":"Karoutas","year":"2021","journal-title":"Nat. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib92","doi-asserted-by":"crossref","first-page":"1248","DOI":"10.1038\/s41556-019-0397-z","article-title":"The NSL complex maintains nuclear architecture stability via lamin A\/C acetylation","volume":"21","author":"Karoutas","year":"2019","journal-title":"Nat. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib93","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1016\/j.ceb.2021.01.007","article-title":"Nuclear fragility, blaming the blebs","volume":"70","author":"Srivastava","year":"2021","journal-title":"Curr. Opin. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib94","doi-asserted-by":"crossref","first-page":"41","DOI":"10.1083\/jcb.200509124","article-title":"Coupling of the nucleus and cytoplasm: Role of the LINC complex","volume":"172","author":"Crisp","year":"2006","journal-title":"J.\u00a0Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib95","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-023-39172-3","article-title":"TMX4-driven LINC complex disassembly and asymmetric autophagy of the nuclear envelope upon acute ER stress","volume":"14","author":"Kuci\u0144ska","year":"2023","journal-title":"Nat. Commun."},{"key":"10.1016\/j.cell.2024.08.020_bib96","doi-asserted-by":"crossref","first-page":"7463","DOI":"10.1074\/jbc.M115.636365","article-title":"RNA Polymerase III Regulates Cytosolic RNA:DNA Hybrids and Intracellular MicroRNA Expression","volume":"290","author":"Koo","year":"2015","journal-title":"J.\u00a0Biol. Chem."},{"key":"10.1016\/j.cell.2024.08.020_bib97","doi-asserted-by":"crossref","DOI":"10.1126\/sciadv.abj5769","article-title":"R-loops trigger the release of cytoplasmic ssDNAs leading to chronic inflammation upon DNA damage","volume":"7","author":"Chatzidoukaki","year":"2021","journal-title":"Sci. Adv."},{"key":"10.1016\/j.cell.2024.08.020_bib98","doi-asserted-by":"crossref","first-page":"80","DOI":"10.1016\/j.jmb.2019.07.016","article-title":"Selective Autophagy: ATG8 Family Proteins, LIR Motifs and Cargo Receptors","volume":"432","author":"Johansen","year":"2020","journal-title":"J.\u00a0Mol. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib99","doi-asserted-by":"crossref","first-page":"491","DOI":"10.1016\/j.tcb.2017.01.001","article-title":"Autophagy Receptors and Neurodegenerative Diseases","volume":"27","author":"Deng","year":"2017","journal-title":"Trends Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib100","doi-asserted-by":"crossref","DOI":"10.15252\/embr.202254801","article-title":"Phosphorylation by casein kinase 2 enhances the interaction between ER-phagy receptor TEX264 and ATG8 proteins","volume":"23","author":"Chino","year":"2022","journal-title":"EMBO Rep."},{"key":"10.1016\/j.cell.2024.08.020_bib101","doi-asserted-by":"crossref","DOI":"10.1126\/sciadv.aba6290","article-title":"A conserved SUMO pathway repairs topoisomerase DNA-protein cross-links by engaging ubiquitin-mediated proteasomal degradation","volume":"6","author":"Sun","year":"2020","journal-title":"Sci. Adv."},{"key":"10.1016\/j.cell.2024.08.020_bib102","doi-asserted-by":"crossref","first-page":"204","DOI":"10.3390\/ph15020204","article-title":"The p97 Inhibitor UPCDC-30245 Blocks Endo-Lysosomal Degradation","volume":"15","author":"Wang","year":"2022","journal-title":"Pharmaceuticals (Basel)"},{"key":"10.1016\/j.cell.2024.08.020_bib103","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1016\/j.chembiol.2022.12.007","article-title":"Inhibitors of the ATPase p97\/VCP: From basic research to clinical applications","volume":"30","author":"Kilgas","year":"2023","journal-title":"Cell Chem. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib104","doi-asserted-by":"crossref","first-page":"1402","DOI":"10.1038\/ng.3441","article-title":"Clock-like mutational processes in human somatic cells","volume":"47","author":"Alexandrov","year":"2015","journal-title":"Nat. Genet."},{"key":"10.1016\/j.cell.2024.08.020_bib105","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1038\/nature17676","article-title":"Landscape of somatic mutations in 560 breast cancer whole-genome sequences","volume":"534","author":"Nik-Zainal","year":"2016","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib106","doi-asserted-by":"crossref","first-page":"1282","DOI":"10.1016\/j.cell.2019.02.012","article-title":"Characterizing Mutational Signatures in Human Cancer Cell Lines Reveals Episodic APOBEC Mutagenesis","volume":"176","author":"Petljak","year":"2019","journal-title":"Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib107","doi-asserted-by":"crossref","first-page":"94","DOI":"10.1038\/s41586-020-1943-3","article-title":"The repertoire of mutational signatures in human cancer","volume":"578","author":"Alexandrov","year":"2020","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib108","doi-asserted-by":"crossref","first-page":"467","DOI":"10.1038\/nature25432","article-title":"Chromosomal instability drives metastasis through a cytosolic DNA response","volume":"553","author":"Bakhoum","year":"2018","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib109","doi-asserted-by":"crossref","first-page":"1080","DOI":"10.1038\/s41586-023-06464-z","article-title":"Non-cell-autonomous cancer progression from chromosomal instability","volume":"620","author":"Li","year":"2023","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib110","doi-asserted-by":"crossref","first-page":"2432","DOI":"10.1002\/1878-0261.13514","article-title":"Chromosomal instability and a deregulated cell cycle are intrinsic features of high-risk gastrointestinal stromal tumours with a metastatic potential","volume":"17","author":"Naml\u00f8s","year":"2023","journal-title":"Mol. Oncol."},{"key":"10.1016\/j.cell.2024.08.020_bib111","doi-asserted-by":"crossref","first-page":"2427","DOI":"10.1016\/j.devcel.2021.07.009","article-title":"Chromosomal instability accelerates the evolution of resistance to anti-cancer therapies","volume":"56","author":"Lukow","year":"2021","journal-title":"Dev. Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib112","doi-asserted-by":"crossref","first-page":"281","DOI":"10.1038\/ncb3308","article-title":"DNA damage signalling targets the kinetochore to promote chromatin mobility","volume":"18","author":"Strecker","year":"2016","journal-title":"Nat. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib113","doi-asserted-by":"crossref","first-page":"823","DOI":"10.1083\/jcb.200510015","article-title":"Changes in chromatin structure and mobility in living cells at sites of DNA double-strand breaks","volume":"172","author":"Kruhlak","year":"2006","journal-title":"J.\u00a0Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib114","doi-asserted-by":"crossref","first-page":"71","DOI":"10.1016\/j.molmed.2019.10.009","article-title":"Mitochondria\u2013Lysosome Crosstalk: From Physiology to Neurodegeneration","volume":"26","author":"Deus","year":"2020","journal-title":"Trends Mol. Med."},{"key":"10.1016\/j.cell.2024.08.020_bib115","doi-asserted-by":"crossref","DOI":"10.1016\/j.celrep.2021.110080","article-title":"The protease SPRTN and SUMOylation coordinate DNA-protein crosslink repair to prevent genome instability","volume":"37","author":"Ruggiano","year":"2021","journal-title":"Cell Rep."},{"key":"10.1016\/j.cell.2024.08.020_bib116","doi-asserted-by":"crossref","first-page":"19","DOI":"10.1083\/jcb.200510071","article-title":"A dynamic ubiquitin equilibrium couples proteasomal activity to chromatin remodeling","volume":"173","author":"Dantuma","year":"2006","journal-title":"J.\u00a0Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib117","doi-asserted-by":"crossref","first-page":"792","DOI":"10.1016\/j.cell.2017.04.023","article-title":"The Logic of the 26S Proteasome","volume":"169","author":"Collins","year":"2017","journal-title":"Cell"},{"key":"10.1016\/j.cell.2024.08.020_bib118","doi-asserted-by":"crossref","DOI":"10.1098\/rsob.230113","article-title":"Tyrosyl-DNA phosphodiesterase 1 (TDP1) and SPRTN protease repair histone 3 and topoisomerase 1 DNA\u2013protein crosslinks in\u00a0vivo","volume":"13","author":"Anticevic","year":"2023","journal-title":"Open Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib119","doi-asserted-by":"crossref","first-page":"288","DOI":"10.1158\/1078-0432.CCR-20-3237","article-title":"In-depth Clinical and Biological Exploration of DNA Damage Immune Response as a Biomarker for Oxaliplatin Use in Colorectal Cancer","volume":"27","author":"Malla","year":"2021","journal-title":"Clin. Cancer Res."},{"key":"10.1016\/j.cell.2024.08.020_bib120","doi-asserted-by":"crossref","first-page":"1116","DOI":"10.1038\/ncb2301","article-title":"Endolysosomal sorting of ubiquitylated caveolin-1 is regulated by VCP and UBXD1 and impaired by VCP disease mutations","volume":"13","author":"Ritz","year":"2011","journal-title":"Nat. Cell Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib121","doi-asserted-by":"crossref","first-page":"583","DOI":"10.1038\/s41586-021-03819-2","article-title":"Highly accurate protein structure prediction with AlphaFold","volume":"596","author":"Jumper","year":"2021","journal-title":"Nature"},{"key":"10.1016\/j.cell.2024.08.020_bib122","doi-asserted-by":"crossref","first-page":"D439","DOI":"10.1093\/nar\/gkab1061","article-title":"AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models","volume":"50","author":"Varadi","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.cell.2024.08.020_bib123","first-page":"100068","article-title":"AreTomo: An integrated software package for automated marker-free, motion-corrected cryo-electron tomographic alignment and reconstruction","volume":"6","author":"Zheng","year":"2022","journal-title":"J.\u00a0Struct. Biol. X"},{"key":"10.1016\/j.cell.2024.08.020_bib124","doi-asserted-by":"crossref","DOI":"10.1002\/pro.4472","article-title":"ArtiaX: An electron tomography toolbox for the interactive handling of sub-tomograms in UCSF ChimeraX","volume":"31","author":"Ermel","year":"2022","journal-title":"Protein Sci."},{"key":"10.1016\/j.cell.2024.08.020_bib125","doi-asserted-by":"crossref","first-page":"1090","DOI":"10.1038\/s41592-018-0216-7","article-title":"Content-aware image restoration: pushing the limits of fluorescence microscopy","volume":"15","author":"Weigert","year":"2018","journal-title":"Nat. Methods"},{"key":"10.1016\/j.cell.2024.08.020_bib126","doi-asserted-by":"crossref","DOI":"10.1186\/gb-2006-7-10-r100","article-title":"CellProfiler: image analysis software for identifying and quantifying cell phenotypes","volume":"7","author":"Carpenter","year":"2006","journal-title":"Genome Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib127","doi-asserted-by":"crossref","first-page":"70","DOI":"10.1002\/pro.3943","article-title":"UCSF ChimeraX: Structure visualization for researchers, educators, and developers","volume":"30","author":"Pettersen","year":"2021","journal-title":"Protein Sci."},{"key":"10.1016\/j.cell.2024.08.020_bib128","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1016\/j.jsb.2015.08.008","article-title":"CTFFIND4: Fast and accurate defocus estimation from electron micrographs","volume":"192","author":"Rohou","year":"2015","journal-title":"J.\u00a0Struct. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib129","doi-asserted-by":"crossref","DOI":"10.1016\/j.mcpro.2021.100077","article-title":"IonQuant Enables Accurate and Sensitive Label-Free Quantification With FDR-Controlled Match-Between-Runs","volume":"20","author":"Yu","year":"2021","journal-title":"Mol. Cell. Proteomics"},{"key":"10.1016\/j.cell.2024.08.020_bib130","doi-asserted-by":"crossref","first-page":"676","DOI":"10.1038\/nmeth.2019","article-title":"Fiji: an Open-Source platform for biological-image analysis","volume":"9","author":"Schindelin","year":"2012","journal-title":"Nat. Methods"},{"key":"10.1016\/j.cell.2024.08.020_bib131","doi-asserted-by":"crossref","first-page":"71","DOI":"10.1006\/jsbi.1996.0013","article-title":"Computer Visualization of Three-Dimensional Image Data Using IMOD","volume":"116","author":"Kremer","year":"1996","journal-title":"J.\u00a0Struct. Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib132","doi-asserted-by":"crossref","first-page":"24","DOI":"10.1038\/nbt.1754","article-title":"Integrative genomics viewer","volume":"29","author":"Robinson","year":"2011","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.cell.2024.08.020_bib133","doi-asserted-by":"crossref","first-page":"457","DOI":"10.1016\/j.redox.2013.12.020","article-title":"OpenComet: An automated tool for comet assay image analysis","volume":"2","author":"Gyori","year":"2014","journal-title":"Redox Biol."},{"key":"10.1016\/j.cell.2024.08.020_bib134","doi-asserted-by":"crossref","first-page":"731","DOI":"10.1038\/nmeth.3901","article-title":"The Perseus computational platform for comprehensive analysis of (prote)omics data","volume":"13","author":"Tyanova","year":"2016","journal-title":"Nat. Methods"},{"key":"10.1016\/j.cell.2024.08.020_bib135","doi-asserted-by":"crossref","DOI":"10.7554\/eLife.36861","article-title":"Characterisation of molecular motions in cryo-EM single-particle data by multi-body refinement in RELION","volume":"7","author":"Nakane","year":"2018","journal-title":"eLife"},{"key":"10.1016\/j.cell.2024.08.020_bib136","doi-asserted-by":"crossref","first-page":"1182","DOI":"10.1017\/S1431927603445911","article-title":"SerialEM: A Program for Automated Tilt Series\u00a0Acquisition on Tecnai Microscopes Using Prediction of Specimen Position","volume":"9","author":"Mastronarde","year":"2003","journal-title":"Microsc. Microanal."},{"key":"10.1016\/j.cell.2024.08.020_bib137","doi-asserted-by":"crossref","first-page":"829","DOI":"10.1038\/s41592-022-01507-1","article-title":"TrackMate 7: integrating state-of-the-art segmentation algorithms into tracking pipelines","volume":"19","author":"Ershov","year":"2022","journal-title":"Nat. Methods"},{"key":"10.1016\/j.cell.2024.08.020_bib138","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1177\/0023677219869037","article-title":"Zebrafish: Housing and husbandry recommendations","volume":"54","author":"Alestr\u00f6m","year":"2020","journal-title":"Lab. Anim."},{"key":"10.1016\/j.cell.2024.08.020_bib139","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1016\/S0140-6736(07)61087-3","article-title":"Different strategies of sequential and combination chemotherapy for patients with poor prognosis advanced colorectal cancer (MRC FOCUS): a randomised controlled trial","volume":"370","author":"Seymour","year":"2007","journal-title":"Lancet"},{"key":"10.1016\/j.cell.2024.08.020_bib140","doi-asserted-by":"crossref","first-page":"1320","DOI":"10.1101\/gad.2053211","article-title":"Analysis of protein dynamics at active, stalled, and collapsed replication forks","volume":"25","author":"Sirbu","year":"2011","journal-title":"Genes Dev."},{"key":"10.1016\/j.cell.2024.08.020_bib141","article-title":"Scalable and efficient DNA sequencing analysis on different compute infrastructures aiding variant discovery","volume":"6","author":"Hanssen","year":"2024","journal-title":"NAR Genom. Bioinform."},{"key":"10.1016\/j.cell.2024.08.020_bib142","doi-asserted-by":"crossref","first-page":"1297","DOI":"10.1101\/gr.107524.110","article-title":"The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data","volume":"20","author":"McKenna","year":"2010","journal-title":"Genome Res."},{"key":"10.1016\/j.cell.2024.08.020_bib143","doi-asserted-by":"crossref","first-page":"591","DOI":"10.1038\/s41592-018-0051-x","article-title":"Strelka2: fast and accurate calling of germline and somatic variants","volume":"15","author":"Kim","year":"2018","journal-title":"Nat. Methods"},{"key":"10.1016\/j.cell.2024.08.020_bib144","doi-asserted-by":"crossref","DOI":"10.1093\/bioinformatics\/btad756","article-title":"Assigning mutational signatures to individual samples and individual somatic mutations with SigProfilerAssignment","volume":"39","author":"D\u00edaz-Gay","year":"2023","journal-title":"Bioinformatics"},{"key":"10.1016\/j.cell.2024.08.020_bib145","doi-asserted-by":"crossref","first-page":"D941","DOI":"10.1093\/nar\/gky1015","article-title":"COSMIC: the Catalogue Of Somatic Mutations In Cancer","volume":"47","author":"Tate","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.cell.2024.08.020_bib154","doi-asserted-by":"crossref","first-page":"19760","DOI":"10.1074\/jbc.M116.739235","article-title":"KHARON Is an Essential Cytoskeletal Protein Involved in the Trafficking of Flagellar Membrane Proteins and Cell Division in African Trypanosomes","volume":"291","author":"Sanchez","year":"2016","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.cell.2024.08.020_bib146","doi-asserted-by":"crossref","DOI":"10.1038\/srep09583","article-title":"Correlative in-resin super-resolution and electron microscopy using standard fluorescent proteins","volume":"5","author":"Johnson","year":"2015","journal-title":"Sci. Rep."},{"key":"10.1016\/j.cell.2024.08.020_bib147","doi-asserted-by":"crossref","first-page":"131","DOI":"10.1038\/s41592-022-01690-1","article-title":"Parallel cryo electron tomography on in\u00a0situ lamellae","volume":"20","author":"Eisenstein","year":"2023","journal-title":"Nat. Methods"},{"key":"10.1016\/j.cell.2024.08.020_bib148","doi-asserted-by":"crossref","DOI":"10.1016\/j.cmpb.2022.106990","article-title":"MemBrain: A deep learning-aided pipeline for detection of membrane proteins in Cryo-electron tomograms","volume":"224","author":"Lamm","year":"2022","journal-title":"Comput. Methods Programs Biomed."},{"key":"10.1016\/j.cell.2024.08.020_bib149","doi-asserted-by":"crossref","first-page":"386","DOI":"10.1006\/bbrc.2000.3682","article-title":"Formic Acid Dissolves Aggregates of an N-Terminal Huntingtin Fragment Containing an Expanded Polyglutamine Tract: Applying to Quantification of Protein Components of the Aggregates","volume":"277","author":"Hazeki","year":"2000","journal-title":"Biochem. Biophys. Res. Commun."},{"key":"10.1016\/j.cell.2024.08.020_bib150","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1038\/79951","article-title":"Effective targeted gene \u2018knockdown\u2019 in zebrafish","volume":"26","author":"Nasevicius","year":"2000","journal-title":"Nat. Genet."},{"key":"10.1016\/j.cell.2024.08.020_bib151","doi-asserted-by":"crossref","first-page":"1439","DOI":"10.1093\/bioinformatics\/btg157","article-title":"Q-Gene: processing quantitative real-time RT\u2013PCR data","volume":"19","author":"Simon","year":"2003","journal-title":"Bioinformatics"},{"key":"10.1016\/j.cell.2024.08.020_bib152","doi-asserted-by":"crossref","first-page":"327","DOI":"10.1016\/j.cbpa.2009.11.011","article-title":"Organic anion transporting polypeptides (OATP) in zebrafish (Danio rerio): Phylogenetic analysis and tissue distribution","volume":"155","author":"Popovic","year":"2010","journal-title":"Comp. Biochem. Physiol. A Mol. Integr. Physiol."},{"key":"10.1016\/j.cell.2024.08.020_bib153","doi-asserted-by":"crossref","first-page":"249","DOI":"10.1093\/biostatistics\/4.2.249","article-title":"Exploration, normalization, and summaries of high density oligonucleotide array probe level data","volume":"4","author":"Irizarry","year":"2003","journal-title":"Biostatistics"}],"container-title":["Cell"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0092867424009115?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0092867424009115?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,11,4]],"date-time":"2025-11-04T04:54:11Z","timestamp":1762232051000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0092867424009115"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,10]]},"references-count":154,"journal-issue":{"issue":"20","published-print":{"date-parts":[[2024,10]]}},"alternative-id":["S0092867424009115"],"URL":"https:\/\/doi.org\/10.1016\/j.cell.2024.08.020","relation":{},"ISSN":["0092-8674"],"issn-type":[{"value":"0092-8674","type":"print"}],"subject":[],"published":{"date-parts":[[2024,10]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"TEX264 drives selective autophagy of DNA lesions to promote DNA repair and cell survival","name":"articletitle","label":"Article Title"},{"value":"Cell","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.cell.2024.08.020","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2024 The Author(s). Published by Elsevier Inc.","name":"copyright","label":"Copyright"}]}}